Table of sequenced samples.

The first 8 columns of the table include the vial number, pig ID, sampling day, Ct value from the rRT-PCR assay targeting the M segment, and subtype-specific assay results (when available). The next 10 columns of the table include the unique sequence ID from Run 1, the classification of each gene segment into a lineage based on the deep sequencing data, and the classification of the sample into a lineage based on all viral gene segments. The last 10 columns include analogous information and results based on Run 2, when applicable. The last column indicates whether the sample was included in the set of samples analyzed in the downstream analyses that focused exclusively on singly infected pigs. All sequencing reads from Run 1 and Run 2 have been deposited to the NCBI Sequencing Read Archive (SRA) BioProject PRJNA1051292. (XLSX)